Summary of Study ST000460

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR000354. The data can be accessed directly via it's Project DOI: 10.21228/M8930Q This work is supported by NIH grant, U2C- DK119886.


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Study IDST000460
Study TitleEffect of ATG7 reconstitution in AGY571 cells
Study TypeCells are treated with vehicle or Doxycycline - to induce expression of GFP or ATG7
Study SummaryAGY571 cells engineered to express Dox-inducible GFP or ATG7 were treated with 500 ng/mL or 1 ug/mL Doxycycline for 48 hours. Assessing the effects of ATG7 reexpression in B cell lymphoma.
University of Florida
LaboratoryJohn Cleveland
Last NameFernandez
First NameMario
Address12902 Magnolia Drive, MRC 4-West
Submit Date2016-09-08
Num Groups5
Total Subjects15
Study CommentsGroups collected in triplicate per time point, either treated or untreated with Doxycycline.
Analysis Type DetailLC-MS
Release Date2020-07-08
Release Version1
Mario Fernandez Mario Fernandez application/zip

Select appropriate tab below to view additional metadata details:


Project ID:PR000354
Project DOI:doi: 10.21228/M8930Q
Project Title:The effect of BCAT1 knockdown on amino acid homeostasis
Project Type:Amino acid steady-state level analysis
Project Summary:Raji cells, a Burkitt lymphoma, expressing a Dox-inducible short hairpin targeting BCAT1 were collected in triplicate at 0, 48, 96, and 144 hours.
Institute:H. Lee Moffitt Cancer Center
Department:Tumor Biology
Laboratory:John Cleveland
Last Name:Fernandez
First Name:Mario
Address:12902 Magnolia Drive, MRC 4-West
Funding Source:5R01CA154739


Subject ID:SU000481
Subject Type:Cells
Subject Species:Mus musculus
Taxonomy ID:10090
Cell Strain Details:AGY571
Subject Comments:See study design section for cell number per sample for cell counts
Cell Primary Immortalized:Immortalized
Species Group:Mammal


Subject type: Cells; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id Treatment Dox Concentration Ectopic Gene Expression
SA023241AGY571_009Doxycycline 1 ug/mL ATG7
SA023242AGY571_007Doxycycline 1 ug/mL ATG7
SA023243AGY571_008Doxycycline 1 ug/mL ATG7
SA023244AGY571_003Doxycycline 1 ug/mL GFP (ATG7-/-)
SA023245AGY571_001Doxycycline 1 ug/mL GFP (ATG7-/-)
SA023246AGY571_002Doxycycline 1 ug/mL GFP (ATG7-/-)
SA023247AGY571_013Doxycycline 500 ng/mL ATG7
SA023248AGY571_014Doxycycline 500 ng/mL ATG7
SA023249AGY571_015Doxycycline 500 ng/mL ATG7
SA023250AGY571_012Doxycycline 500 ng/mL GFP (ATG7-/-)
SA023251AGY571_010Doxycycline 500 ng/mL GFP (ATG7-/-)
SA023252AGY571_011Doxycycline 500 ng/mL GFP (ATG7-/-)
SA023253AGY571_006Vehicle 0 ug/mL None (ATG7-/- backgound)
SA023254AGY571_005Vehicle 0 ug/mL None (ATG7-/- backgound)
SA023255AGY571_004Vehicle 0 ug/mL None (ATG7-/- backgound)
Showing results 1 to 15 of 15


Collection ID:CO000475
Collection Summary:Cells were counted, cells were collected via centrifugation, washed twice with cold 1x PBS, PBS removed and flash frozen. Pellets were saved at -80 C.
Sample Type:Cell
Collection Method:Pellet
Collection Location:Lab
Collection Frequency:48 hours after Dox treatment
Storage Conditions:Pellet at -80C
Storage Vials:1.5 mL microfuge tube
Tissue Cell Identification:AGY571 cells


Treatment ID:TR000495
Treatment Summary:Cells were treated with vehicle (dH2O) or 500 ng/mL doxycycline.
Treatment Compound:Doxycycline
Treatment Dose:0.5-1.0 ug/mL
Treatment Dosevolume:5 mL
Treatment Doseduration:48 hours
Treatment Vehicle:dH2O
Cell Growth Container:6-well plate

Sample Preparation:

Sampleprep ID:SP000488
Sampleprep Summary:Amino acid
Sampleprep Protocol Filename:SB_AA_Assay.pdf

Combined analysis:

Analysis ID AN000721
Analysis type MS
Chromatography type Reversed phase
Chromatography system Agilent 1290 Infinity
Column Waters AccQ Tag (100 x 2mm,1.7um)
MS instrument type Triple quadrupole
MS instrument name Agilent 6490 QQQ
Units nmol/mg protein


Chromatography ID:CH000518
Chromatography Summary:Amino Acid
Methods Filename:SB_AA_Assay.pdf
Instrument Name:Agilent 1290 Infinity
Column Name:Waters AccQ Tag (100 x 2mm,1.7um)
Column Temperature:55
Flow Rate:0.7 mL/min
Solvent A:AccQ·Tag Eluent A
Solvent B:accQ·Tag Eluent B
Chromatography Type:Reversed phase


MS ID:MS000641
Analysis ID:AN000721
Instrument Name:Agilent 6490 QQQ
Instrument Type:Triple quadrupole
MS Comments:Amino Acids